Metadata overview

Data Sparcity

Between sample variability

Principal Component Analysis

Sample intensity distributions

Median Normalization

Protein Group Inference

Protein groups are identified adopting the method used in MSDaPl [@Sharma2012] in which the parsimonious protein inference implemented is based on the IDPicker algorithm [@Ma2009]. The steps involved in the grouping of the indistinguishable protein groups are as follows:

• Step 1: A bipartitie graph is created with edges between peptides and their matching proteins.
  

• Step 2: Peptides that match the same set of proteins are merged into a single node in the graph. For example, peptides 3, 7, and 9 match protein A and no other protein.
  

• Step 3: Proteins that match the same set of peptide are merged into a single node in the graph. These proteins comprise an indistinguishable protein group.
  

In this experiment, we report 1333 protein groups and 7007 non-redundant peptides inferred from 7990 peptides measured.

CV Assessment

Differential Analysis